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mmu_circPten_425
Basic information of circular RNA
PanCircBase ID:
mmu_circPten_425
mm39_Chr. Position ID:
chr19|32775470|32789237|+
Gene name:
Pten
Transcript:
ENSMUST00000013807.8
CircRNA type:
Exonic circular (circ)RNA
Exon/Intron count:
3
Exon/intron indexes:
4,5,6
Exon/intron offsets:
0,1790,13625
Genomic length:
13767
Exon/intron sizes in nt:
4,42,39,142
Flanking exon/introns:
chr19:32769993-32775470|chr19:32789237-32792816
Splice length:
425
Other database IDs:
circAtlas: mmu-Pten_0014
circBase: hsa_circ_0019059
Human Ortholog IDs:
Mature spliced Sequence:
ATGTGCTGAGAGACATTATGACACCGCCAAATTTAACTGCAGAGTTGCACAGTATCCTTTTGAAGACCATAACCCACCACAGCTAGAACTTATCAAACCCTTCTGTGAAGATCTTGACCAATGGCTAAGTGAAGATGACAATCATGTTGCAGCAATTCACTGTAAAGCTGGAAAGGGACGGACTGGTGTAATGATTTGTGCATATTTATTGCATCGGGGCAAATTTTTAAAGGCACAAGAGGCCCTAGATTTTTATGGGGAAGTAAGGACCAGAGACAAAAAGGGAGTCACAATTCCCAGTCAGAGGCGCTATGTATATTATTATAGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCA
Divergent primers for circular RNA PCR
Primer Set-1
Forward primer
Tm
Reverse primer
Tm
Product size
ATTACAGACCCGTGGCACTG
60.04
GCTGTGGTGGGTTATGGTCT
59.67
158
Primer Set-2
Forward primer
Tm
Reverse primer
Tm
Product size
ATTACAGACCCGTGGCACTG
60.04
AGCTGTGGTGGGTTATGGTC
59.67
159
PCR template sequence:
AGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATGTGCTGAGAGACATTATGACACCGCCAAATTTAACTGCAGAGTTGCACAGTATCCTTTTGAAGACCATAACCCACCACAGCTAGAACTTATCAAACCC
Note: Users can design additional primers for provided template sequence using Primer3 or NCBI primer-blast.
miRNAs associated with circular RNAs
No of miRNAs
1
Interacting miRNAs (#binding sites)
mmu-miR-211-5p(1)
siRNAs for circular RNA silencing
Junction sequence
GGCGGAACTTGCAATGTGCTGAGAGA
siRNA sets
CAGCACATTGCAAGTTCCG, TCAGCACATTGCAAGTTCC, AGCACATTGCAAGTTCCGC
Protein-coding potential of circular RNAs
CPAT analysis
CPAT ORF ID
CPAT Fickett
CPAT Hexamer
Coding probabilty
ORF length
CIRCPTEN_425_ORF_1
0.7981
-0.031175113
0.169407658
321
ORF sequence:
ATGATTTGTGCATATTTATTGCATCGGGGCAAATTTTTAAAGGCACAAGAGGCCCTAGATTTTTATGGGGAAGTAAGGACCAGAGACAAAAAGGGAGTCACAATTCCCAGTCAGAGGCGCTATGTATATTATTATAGCTACCTGCTAAAAAATCACCTGGATTACAGACCCGTGGCACTGCTGTTTCACAAGATGATGTTTGAAACTATTCCAATGTTCAGTGGCGGAACTTGCAATGTGCTGAGAGACATTATGACACCGCCAAATTTAACTGCAGAGTTGCACAGTATCCTTTTGAAGACCATAACCCACCACAGCTAG
Peptide sequence:
MICAYLLHRGKFLKAQEALDFYGEVRTRDKKGVTIPSQRRYVYYYSYLLKNHLDYRPVALLFHKMMFETIPMFSGGTCNVLRDIMTPPNLTAELHSILLKTITHHS
IRESfinder result
IRESfinder score
0.600092977
IRES/non IRES
IRES
riboCIRC information
riboCIRC ID
NA
NA
Evidence
Peptide sequence:
NA
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